Characterisation of a Putative Agent of Horizontal Gene Transfer Encoded by a Bacterial Prophage Region
Y3877831
Introduction
MuGam is a homologue of eukaryotic proteins Ku70/Ku80, which are involved in recognizing double-strand DNA prior to repair, as well as DNA transposition. In Haemophilus influenzae, Gam (HiGam) inhibits digestion of Mu phage DNA by nucleases (d’Adda di Fagagna, Weller, Doherty, et al., 2003).
The aim of this report is to characterise HiGam by processing the data obtained from the following experiments:
- Polymerase chain reaction (PCR)
- Quantitative polymerase chain reaction (qPCR)
- Electrophoretic mobility shift assay (EMSA)
- Size-exclusion chromatography (SEC)
- Analytical ultracentrifugation (AUC) ???
Requirements
Analysis
Linear Regression for gDNA and cDNA PCR
Electrophoretic Mobility Shift Assay (EMSA) & Binding Affinity
Size Exclusion Chromatography (SEC)
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Bibliography
Packages
Allaire, J., Y. Xie, J. McPherson, et al. (2021). rmarkdown: Dynamic Documents for R. R package version 2.11. URL: https://CRAN.R-project.org/package=rmarkdown.
McLean, M. W. (2020). RefManageR: Straightforward BibTeX and BibLaTeX Bibliography Management. R package version 1.3.0. URL: https://github.com/ropensci/RefManageR/.
Xie, Y., J. Allaire, and G. Grolemund (2018). R Markdown: The Definitive Guide. ISBN 9781138359338. Boca Raton, Florida: Chapman and Hall/CRC. URL: https://bookdown.org/yihui/rmarkdown.
Xie, Y., C. Dervieux, and E. Riederer (2020). R Markdown Cookbook. ISBN 9780367563837. Boca Raton, Florida: Chapman and Hall/CRC. URL: https://bookdown.org/yihui/rmarkdown-cookbook.
References
d’Adda di Fagagna, F., G. R. Weller, A. J. Doherty, et al. (2003). “The Gam protein of bacteriophage Mu is an orthologue of eukaryotic Ku”. En. In: EMBO reports 4.1, pp. 47-52.